RetrogeneDB ID: retro_tsyr_496

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_128198:320..1259(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: ILF2
• Ensembl ID: ENSTSYG00000012061
• Aliases: None
• Description: interleukin enhancer binding factor 2 [Source:HGNC Symbol;Acc:6037]

Sequence

>retro_tsyr_496
GATCAGACTTCTTTCAGTGAGGCCTTGCTGAAGAGGAATCAGGACCTGGCTCCTAATTCTACTGAACAGGCCTCTATCCT
TTCTCTGGTGACAAAAATAAACAATGTGATTGACAATCTGATTGTAGCTCCAGAAACATTTGAAGTGCAAATTGAAGAAG
CCTGACAGGTAGGATCATATAAAAAGGGAACAATGGCTACAAGACACAATGTAGCTGACCTGGTGGTAATACTGAAGATT
CTGCCAACAATGGAAGCTGTTGCTGCTCTGGGGAACAAAGTTGTGCAAAGTCTAAGAGCGCAGGATCCTTCTGAAGTTTT
GACCATGCTGACCAATGAAACTGGTTTTGAAATCAGTTCTTCTGATGCCACAGTGAAGATTCTTATTACAACAGTGCCAC
CCAATTTCCGAAAACTGGACCCAGAGCTTCATTTGGGTTTCAAGGTGTTGCAGAGTGCCTTAGCAGCTATCCGACATGCC
CACTGGTTTGAGGAAAATGCTTCTCAGTTCACAGTTAAAGTTCTCATCAGACCGTTAAAGGACTTGAGGATTCATTTTCC
TAGTTTTGAGCTCCTCACACCCTGGATCCTAGACCTACTTGGTCATTATGCTGTGATGAACAACCCCACCAGACAGCCTT
TGGCCCTAAATGTTGCATACAGCCATTGCTTGCAGATTCTGGCTGCAAGACTATTCCTGCCAGGTTCAGTGGGTATCACT
GACCCCTGTGAGAGTGGCAACTTCAGAGTACACACAGTCATGACCCTAGAACAGCAGGATATGGTCTGCTACACAGCTCA
GACTTTGGTCCGCATCCTTTCACGTGGTGACTTTAGGAAGATTCTTGGCCAGGAGGGTGACGCCAGCTATCTTGCTTCTG
AAATATCTATCTGGGATGGAGTGAAAGTGACACCCTCAGAAAAGGCTTATAAGAAGCCA

Alignment

ORF - retro_tsyr_496 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.05 %
• Parental protein coverage: 88.42 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  DETSFSEALLKRNQDLAPNSAEQASILSLVTKKNNVIDNLIVAPGTFEVQIEEVRQVGSYKKGTMTTGHN
          D.TSFSEALLKRNQDLAPNS.EQASILSLVTK.NNVIDNLIVAP.TFEVQIEE..QVGSYKKGTM.T.HN
Retrocopy DQTSFSEALLKRNQDLAPNSTEQASILSLVTKINNVIDNLIVAPETFEVQIEEA*QVGSYKKGTMATRHN

Parental  VTDLVVILKILPTLEAVAALGNKVVESLRAQDPSEVLTMLTNETGFEISSSDATVKILITTVPPNLRKLD
          V.DLVVILKILPT.EAVAALGNKVV.SLRAQDPSEVLTMLTNETGFEISSSDATVKILITTVPPN.RKLD
Retrocopy VADLVVILKILPTMEAVAALGNKVVQSLRAQDPSEVLTMLTNETGFEISSSDATVKILITTVPPNFRKLD

Parental  PELHLDIKVLQSALAAIRHARWFEENASQSTVKVLIRLLKDLRIRFPGFEPLTPWILDLLGHYAVMNNPT
          PELHL..KVLQSALAAIRHA.WFEENASQ.TVKVLIR.LKDLRI.FP.FE.LTPWILDLLGHYAVMNNPT
Retrocopy PELHLGFKVLQSALAAIRHAHWFEENASQFTVKVLIRPLKDLRIHFPSFELLTPWILDLLGHYAVMNNPT

Parental  RQPLALNVAYRRCLQILAAGLFLPGSVGITDPCESGNFRVHTVMTLEQQDMVCYTAQTLVRILSHGGFRK
          RQPLALNVAY..CLQILAA.LFLPGSVGITDPCESGNFRVHTVMTLEQQDMVCYTAQTLVRILS.G.FRK
Retrocopy RQPLALNVAYSHCLQILAARLFLPGSVGITDPCESGNFRVHTVMTLEQQDMVCYTAQTLVRILSRGDFRK

Parental  ILGQEGDASYLASEISTWDGVIVTPSEKAYEKP
          ILGQEGDASYLASEIS.WDGV.VTPSEKAY.KP
Retrocopy ILGQEGDASYLASEISIWDGVKVTPSEKAYKKP

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Tarsius syrichta was not studied using RNA-Seq expression data.

ChIP-Seq

Tarsius syrichta was not studied using ChIP-Seq data.

EST

Tarsius syrichta was not studied using EST data.

TSS

Tarsius syrichta was not studied using FANTOM5 data.

Lab

retro_tsyr_496 was not experimentally validated.

Homology

Retrocopy orthology:

Tarsius syrichta does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

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Parental genes homology:

Parental genes homology involve 8 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000143621	2 retrocopies	retro_hsap_1405, retro_hsap_2654,
Macropus eugenii	ENSMEUG00000003651	1 retrocopy	retro_meug_1174,
Microcebus murinus	ENSMICG00000013730	1 retrocopy	retro_mmur_206,
Myotis lucifugus	ENSMLUG00000001847	3 retrocopies	retro_mluc_1046, retro_mluc_217, retro_mluc_2402,
Oryctolagus cuniculus	ENSOCUG00000005430	1 retrocopy	retro_ocun_1216,
Pongo abelii	ENSPPYG00000000800	1 retrocopy	retro_pabe_2318,
Ictidomys tridecemlineatus	ENSSTOG00000000667	1 retrocopy	retro_itri_130,
Tarsius syrichta	ENSTSYG00000012061	3 retrocopies	retro_tsyr_1448, retro_tsyr_1745, retro_tsyr_496 ,